Locus 6028

Sequence ID	2L_DroMel_CAF1
Location	16,988,419 – 16,988,526
Length	107
Max. P	0.999579

overview

Window 1

Location	16,988,419 – 16,988,526
Length	107
Sequences	5
Columns	107
Reading direction	forward
Mean pairwise identity	91.50
Mean single sequence MFE	-32.96
Consensus MFE	-27.42
Energy contribution	-28.10
Covariance contribution	0.68
Combinations/Pair	1.14
Mean z-score	-3.14
Structure conservation index	0.83
SVM decision value	3.44
SVM RNA-class probability	0.999215
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16988419 107 + 22407834
GUAGAUGACAAGAUUAAAGUUAACUCAAUCAAAAUUGAGAUACCAUUUCCAAUUUUGUUCGAGUACAUCAGCAACAGUUUUGGCCACUGUUGUGGCCAACCUUCCGC
((.((((....(((....))).((((...((((((((.((.......))))))))))...)))).)))).)).......((((((((....))))))))........ ( -29.70)
>DroSec_CAF1 95675 107 + 1
GUAGAUCAGAAGAUUAAAGUUAACUCAAUCAGAAUUGGGAUACCAUUUCCAAUUUUGUUCGAGUACAUCAGCAACAGUUGUGGCCACUGUUGUGGCCAACCUUCCGC
........((((..........((((...(((((((((((......)))))))))))...))))....((((....))))(((((((....)))))))..))))... ( -34.60)
>DroSim_CAF1 97615 107 + 1
GUAGAUCAGCAGAUUAAAGUUAACUCAAUCAGAAUUGGGAUACCAUUUCCAAUUUUGUUCGAGUACAUCAGCAACAGUUGUGGCCACUGUUGUGGCCAACCUUCCGC
...((((....)))).......((((...(((((((((((......)))))))))))...))))....((((....))))(((((((....)))))))......... ( -33.00)
>DroEre_CAF1 98425 107 + 1
GUGGAUCGGAAGAUUAAACUUAACUCAAGCCAAAUUGAGAUACCAUUACCAAUUUUGUUCGAGUACAUCAGCAACAGUUGGGGCCGCUGUUGUGGCCAACCCACCGC
(((((((....))).........(((((......))))).........(((((((((((.((.....))))))).))))))((((((....))))))...))))... ( -33.80)
>DroYak_CAF1 98437 107 + 1
GUGGAUCAGAAGAUUAAAGUUAACUCAAUCAAAAUUGGAGUACCAUUCCCAGUUUUGUUCGAGUACAUCAGCAACAGUUGGGGCCACUAUUGUGGCCAACCUUCCGC
(((((.................((((...(((((((((.(.......))))))))))...))))...(((((....)))))((((((....)))))).....))))) ( -33.70)
>consensus
GUAGAUCAGAAGAUUAAAGUUAACUCAAUCAAAAUUGGGAUACCAUUUCCAAUUUUGUUCGAGUACAUCAGCAACAGUUGUGGCCACUGUUGUGGCCAACCUUCCGC
...((((....)))).......((((...(((((((((((......)))))))))))...))))....((((....)))).((((((....)))))).......... (-27.42 = -28.10 +   0.68)

alignment

secondary structure

dotplot

Window 2

Location	16,988,419 – 16,988,526
Length	107
Sequences	5
Columns	107
Reading direction	reverse
Mean pairwise identity	91.50
Mean single sequence MFE	-32.58
Consensus MFE	-29.18
Energy contribution	-30.42
Covariance contribution	1.24
Combinations/Pair	1.10
Mean z-score	-2.51
Structure conservation index	0.90
SVM decision value	3.74
SVM RNA-class probability	0.999579
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16988419 107 - 22407834
GCGGAAGGUUGGCCACAACAGUGGCCAAAACUGUUGCUGAUGUACUCGAACAAAAUUGGAAAUGGUAUCUCAAUUUUGAUUGAGUUAACUUUAAUCUUGUCAUCUAC
((((.((.((((((((....))))))))..)).)))).((((.((((((.((((((((((.......)).)))))))).))))))...............))))... ( -32.59)
>DroSec_CAF1 95675 107 - 1
GCGGAAGGUUGGCCACAACAGUGGCCACAACUGUUGCUGAUGUACUCGAACAAAAUUGGAAAUGGUAUCCCAAUUCUGAUUGAGUUAACUUUAAUCUUCUGAUCUAC
.(((((((((((((((....)))))).................((((((.((.((((((..........)))))).)).)))))).......)))))))))...... ( -33.50)
>DroSim_CAF1 97615 107 - 1
GCGGAAGGUUGGCCACAACAGUGGCCACAACUGUUGCUGAUGUACUCGAACAAAAUUGGAAAUGGUAUCCCAAUUCUGAUUGAGUUAACUUUAAUCUGCUGAUCUAC
(((((.((((((((((....)))))))..))).....(((.((((((((.((.((((((..........)))))).)).))))))..)).))).)))))........ ( -31.80)
>DroEre_CAF1 98425 107 - 1
GCGGUGGGUUGGCCACAACAGCGGCCCCAACUGUUGCUGAUGUACUCGAACAAAAUUGGUAAUGGUAUCUCAAUUUGGCUUGAGUUAAGUUUAAUCUUCCGAUCCAC
...(((((((((..(((.(((((((.......))))))).)))((((((.(.(((((((..........))))))).).)))))).............))))))))) ( -31.20)
>DroYak_CAF1 98437 107 - 1
GCGGAAGGUUGGCCACAAUAGUGGCCCCAACUGUUGCUGAUGUACUCGAACAAAACUGGGAAUGGUACUCCAAUUUUGAUUGAGUUAACUUUAAUCUUCUGAUCCAC
.(((((((((((((((....)))))).................((((((.(((((.((((........)))).))))).)))))).......)))))))))...... ( -33.80)
>consensus
GCGGAAGGUUGGCCACAACAGUGGCCACAACUGUUGCUGAUGUACUCGAACAAAAUUGGAAAUGGUAUCCCAAUUUUGAUUGAGUUAACUUUAAUCUUCUGAUCUAC
.(((((((((((((((....)))))).................((((((.(((((((((..........))))))))).)))))).......)))))))))...... (-29.18 = -30.42 +   1.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:12 2006